X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 30% JEFFAMINE M-600, MES PH 6.5, 50 MM CSCL

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 108.39 α = 90
b = 108.39 β = 90
c = 102.81 γ = 120
Symmetry
Space Group P 62

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH MIRRORS 2001-05-15
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 -- ESRF ID29

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2.5 27 97.3 0.071 -- -- 5.2 -- 23044 -- -- --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.5 2.59 84.6 0.421 -- 1.9 3.1 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MAD 2.4 33.52 -- -- -- 25316 1281 100.0 -- -- 0.201 0.276 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.4 2.46 -- 94 1845 0.235 0.324 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 36.38
Anisotropic B[1][1] -3.11
Anisotropic B[1][2] -1.55
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.11
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 4.67
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 3.493
r_angle_refined_deg 2.675
r_dihedral_angle_1_deg 5.322
r_nbd_refined 0.4
r_mcangle_it 2.251
r_gen_planes_refined 0.012
r_chiral_restr 0.171
r_symmetry_hbond_refined 0.676
r_scangle_it 4.914
r_mcbond_it 1.249
r_dihedral_angle_3_deg 21.398
r_xyhbond_nbd_refined 0.22
r_metal_ion_refined 0.155
r_bond_refined_d 0.028
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3793
Nucleic Acid Atoms 0
Heterogen Atoms 688
Solvent Atoms 151

Software

Software
Software Name Purpose
REFMAC refinement version: 5.0.36
DENZO data reduction
SCALA data scaling
SHARP phasing